Migratory birds have evolved the ability to accumulate fat reserves to fuel their migratory journeys. However, increased fuel load leads to an increased body mass, which is expected to impair flight performance and increase predation risk. Results of previous research are contradictory, with some studies reporting detrimental effects of fat load on flight performance, while others showing no such influences. Furthermore, no studies have investigated the relationship between fat load and flight performance in obligate aerial insectivores, which are known to accumulate only moderate fat loads while migrating overland and not crossing wide ecological barriers such as oceans or deserts. In this study we investigated the inter-individual variation in short-term flight performance (flight manoeuvrability, velocity and acceleration) in juvenile Barn Swallows Hirundo rustica in relation to fat load in Poland (central Europe), during the initial stages of autumn southward migration. We evaluated individual swallow fat loads by means of a Total Body Electrical Conductivity (TOBEC) scanner. In order to evaluate short-term flight performance in a standardised manner we used flight tunnels. We controlled statistically for the independent effect of wing morphology, which can be expected to influence flight performance. Juvenile fat loads were on average 7.5% (range 0.2–20.5) of lean body mass, but we found no negative effect of the fat mass on short-term flight performance traits. Individuals with larger fat mass reached higher velocity compared to leaner ones, which is in line with theoretical expectations. However, fat mass did not significantly predict flight manoeuvrability or acceleration. The results indicate that relatively small fat loads accumulated by juvenile Barn Swallows during overland migration do not impair short-term flight performance.